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MCL coexpression mm9:1221: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0.0603359324119895,0.065002016191076,0.281033021353425,0,0,0.42793910986591,0.436114053480951,0.140303137914384,0,0,0,0,0,0,0,0,0,0,0,0,0.135530594405442,0,0,0.342124147769716,0.384576031558825,0.434999136142762,0.315068718905327,0.23656656753503,0.400194772008943,0.473315362044914,0.636082264480704,0,0,0,0.905069019584172,0.75649247280783,0.853661339178343,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0285370623344958,0,0,0,0.169653421681578,0,0,0,0,0,0,0.10862970414532,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.14759666903706,0,0,0.357417438191274,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0619941838335705,0.101901855392646,0,0.0906941294286938,0.0972974487889418,0.142639414080017,0.123500036840092,0.196086850610712,0.289824790457,0.174378754247607,0.390426518023988,0.310544043043901,0.171496051571008,0.446791645189773,0.542067158667569,0.445957637282262,0,0,0,0,0,0.0294389011296462,0,0,0,0,0,0,0,0.0880872011895838,0.0802151268900158,0,0.098514232005992,0,0.0326283328848338,0,0,0,0,0,0,0,0.10509597335063,0,0,0,0,0.213803923108774,0.130923996037535,0.295714018215793,0.157990948340682,0.221256159519088,0.252898260105712,0.1197757130707,0.270311896622504,0.217309081680009,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0576433181427177,0.0355847379748454,0,0.313335278974714,0,0.615706741308013,0.679123714084774,0.686473045805892,0.526651332899887,0.348254340127296,0.244617111641305,0.419894177131123,0.496789139422435,0,0,0,0,0,0.0264159477773836,0,0,0,0,0,0,0,0,0,0,0,0,0,0.335643082588139,0,0,0.0814866010703366,0,0,0,0,0.0340889275307749,0.0284431781081945,0.0562185712770556,0.377434123690414,0,0.206814654737266,0.103415315291146,0.0824580172145032,0.0857765460992942,0.027471976078474,0.137138167299103,0.182845846232878,0.828167123619145,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.380790073585888,0.0421752250554017,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0413232520190408,0,0,0.149856261570464,0.120876255993453,0,0,0,0.0388749848471105,0.0396401807728516,0.0357392340837099,0,0.0690741623162511,0,0,0.0858532545793502,0.0640168649599105,0,0.0464368173027965,0,0.0569785733435272,0,0,0,0.0553034373508932,0,0.0486884105045233,0,0,0,0,0,0.0456455446387725,0,0,0,0
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|gostat_on_MCL_coexpression=GO:0016176;superoxide-generating NADPH oxidase activator activity;0.00569753744574322;241275!GO:0004993;serotonin receptor activity;0.00712133649185093;15562!GO:0004935;adrenoceptor activity;0.0104429099297523;15562!GO:0006801;superoxide metabolic process;0.0106790781611359;241275!GO:0006800;oxygen and reactive oxygen species metabolic process;0.0165106372086046;241275!GO:0008227;amine receptor activity;0.0203932444933924;15562!
|gostat_on_MCL_coexpression=GO:0016176;superoxide-generating NADPH oxidase activator activity;0.00569753744574322;241275!GO:0004993;serotonin receptor activity;0.00712133649185093;15562!GO:0004935;adrenoceptor activity;0.0104429099297523;15562!GO:0006801;superoxide metabolic process;0.0106790781611359;241275!GO:0006800;oxygen and reactive oxygen species metabolic process;0.0165106372086046;241275!GO:0008227;amine receptor activity;0.0203932444933924;15562!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005409!5.58e-25!47;UBERON:0000160!4.51e-23!31;UBERON:0001007!1.58e-13!116;UBERON:0001555!1.58e-13!116;UBERON:0007026!1.58e-13!116;UBERON:0004119!5.09e-13!118;UBERON:0000925!5.09e-13!118;UBERON:0006595!5.09e-13!118;UBERON:0004921!3.08e-12!114;UBERON:0000344!2.01e-11!15;UBERON:0001242!1.43e-09!13;UBERON:0000060!1.43e-09!13;UBERON:0001262!1.43e-09!13;UBERON:0004786!1.43e-09!13;UBERON:0000485!2.77e-07!11
}}
}}

Revision as of 16:32, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:12268528..12268573,-p@chr10:12268528..12268573
-
Mm9::chr18:62483479..62483498,+p2@Htr4
Mm9::chr2:24950600..24950612,-p3@Noxa1
Mm9::chr2:24950615..24950630,-p4@Noxa1
Mm9::chr2:24950645..24950658,-p2@Noxa1
Mm9::chr2:24950672..24950689,-p1@Noxa1


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0016176superoxide-generating NADPH oxidase activator activity0.00569753744574322
GO:0004993serotonin receptor activity0.00712133649185093
GO:0004935adrenoceptor activity0.0104429099297523
GO:0006801superoxide metabolic process0.0106790781611359
GO:0006800oxygen and reactive oxygen species metabolic process0.0165106372086046
GO:0008227amine receptor activity0.0203932444933924



Relative expression of the co-expression cluster over median <br>Analyst:




Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
gastrointestinal system5.58e-2547
intestine4.51e-2331
digestive system1.58e-13116
digestive tract1.58e-13116
primitive gut1.58e-13116
endoderm-derived structure5.09e-13118
endoderm5.09e-13118
presumptive endoderm5.09e-13118
subdivision of digestive tract3.08e-12114
mucosa2.01e-1115
intestinal mucosa1.43e-0913
anatomical wall1.43e-0913
wall of intestine1.43e-0913
gastrointestinal system mucosa1.43e-0913
simple columnar epithelium2.77e-0711


TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs




JASPAR motifs


Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}

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